Showalign - Display a multiple sequence alignment [Manual]

Reference sequence(Number or Name)
Display reference sequence at bottom
What to show All of the sequence Identities between the sequences Non-identities between the sequences Similarities between the sequences Dissimilarities between the sequences
Output order of the sequence Input order - no change Alphabetical order of the names Similarity to the reference sequence
Similar case
Similarity scoring Matrix file Auto Selected EBLOSUM30 EBLOSUM35 EBLOSUM40 EBLOSUM45 EBLOSUM50 EBLOSUM55 EBLOSUM60 EBLOSUM62 EBLOSUM62-12 EBLOSUM65 EBLOSUM70 EBLOSUM75 EBLOSUM80 EBLOSUM85 EBLOSUM90 EDNAFULL EDNAMAT EPAM10 EPAM100 EPAM110 EPAM120 EPAM130 EPAM140 EPAM150 EPAM160 EPAM170 EPAM180 EPAM190 EPAM20 EPAM200 EPAM210 EPAM220 EPAM230 EPAM240 EPAM250 EPAM260 EPAM270 EPAM280 EPAM290 EPAM30 EPAM300 EPAM310 EPAM320 EPAM330 EPAM340 EPAM350 EPAM360 EPAM370 EPAM380 EPAM390 EPAM40 EPAM400 EPAM410 EPAM420 EPAM430 EPAM440 EPAM450 EPAM460 EPAM470 EPAM480 EPAM490 EPAM50 EPAM500 EPAM60 EPAM70 EPAM80 EPAM90 Matrix File
Display consensus line at the bottom
Regions to put in uppercase
Display number
Display ruler
Width of sequence to display
Length of the left-hand margin for sequence names (Integer -1 or more)
Regions to colour (ex:1-50 green 125-165 red)
Set a cut-off for the % of positive scoring matches below which there is no consensus (0.000~100.000)
Sets the threshold for the scores (Any integer value)
Facility of setting the required number of identities at a position for it to give a consensus (0.000~100.000)